Gene loci information

Transcript annotation

  • This transcript has been annotated as ATP-binding cassette sub-family B member 10, mitochondrial.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_1 g9781 g9781.t3 TSS g9781.t3 5151055 5151055
chr_1 g9781 g9781.t3 isoform g9781.t3 5151278 5153263
chr_1 g9781 g9781.t3 exon g9781.t3.exon1 5151278 5152933
chr_1 g9781 g9781.t3 cds g9781.t3.CDS1 5151755 5152933
chr_1 g9781 g9781.t3 exon g9781.t3.exon2 5152988 5153263
chr_1 g9781 g9781.t3 cds g9781.t3.CDS2 5152988 5153263
chr_1 g9781 g9781.t3 TTS g9781.t3 5153359 5153359

Sequences

>g9781.t3 Gene=g9781 Length=1932
ATGAAATTTAAAAATTCTGATCTAAAGCGACTCTTGTCATTAGCTAAACCAGAAAAATGG
TCAATTGCAGGTAAATAGTTGTAAAATAAAATTTATCAAATATCTCTATAAATTTTATCC
TTATAGGTGCAATCGGATGTCTGATAATTTCTTCTTCAATAACAATGGCTGTTCCATTCG
GTTTAGGGAAGATCCTCGATGCAATATATTCAACTGACACAGATAGCAAGCAAGCTAGAG
AGAAACTCAATGAATTTTGTGCCATTCTTGCTGGCATTTTCATTATCGGAGGTGTTGCAA
ATTTTGGCCGCGTCTACTTGTTTAATAACGCATGTGAGTTTAGAGATAAGGAATTACTTA
TTTTAAATGTTACATCATCTCTCATAAACGTGAACACTTTTTCTTACTCTCACTCTCAAC
TTTTTAGCATTGAGAATCACAAAAAGATTACGAGAGTTACTCTATAAAAGAATAACTATG
CAAGAATGTTCATGGTTTGATACAAAAGGTACTGGTGAATTAGTCAATCGTTTGTCTGCT
GATACATCAATGGTCGGTAATTCTTTAAGTCAAAATCTTTCCGATGGCTTAAGATCAACT
GCAATGGTTTTGGCTGGGACAGGAATGATGATTTATACATCACCTAGTTTAGCTTTAGTT
GGTGCCGGAGTTGTTCCTTGTGTAGCCGGAATGGCTGTTGTTTATGGCCGATATTTAAGA
AACATCACAAGACAAATGATGGATAAACTCGCTGATGTAATGAAAGTTGGTGAAGAACGA
ATGGGAAATATCAAAACTGTAAAAATTTTCAGCAAAGAAAGGCGCGAAAATGAAATTCTC
TCAAAGGAGCTTGAAGATGCACTACAAATTGGATATCGAGAGTCAAAAGCACGTGCAATA
TTTTATGGAATGACAGGATTATCTGGAAATATTATAATTATGTCTGTTTTGTACTATGGT
GGAATTTTAGTTAATGATGGATCACTTTCAATTGGTTCTTTGACATCATTTATTTTATAT
GCAGCTTATACAGCAATTTCAATTGGTGGTTTGAGTAATTTTTATACAGAACTCAATAAA
GGAATTGGAAGTGCAACTCGAATCTGGGAAATTATGGATAGACAGCCACTAATACCAATT
GAAGGTGGTTTAATTCCGTCACTAAAACCAAGAGGTGAAATTTCATTTAGAAATGTTTCT
TTCAATTATCCATCTCGACCTGATGCAACTGTCATCAAAAATATGGACATGAATGTTCAA
GCTGGACAAATTACAGCAATTGTTGGACGATCTGGCAGTGGAAAATCTTCAATAGCTTCA
CTTTTAATGAGACTTTATGATCCACAAAATGGTGACATTTTTCTTGATGGTCATAATTTA
AGAACTCTTGATCCATCATGGCTTAGAAAGCATATTGGAGCTGTGAATCAAGAACCTGTA
CTCTTTAGTGGTTCAATCAGAGACAATATTCTTTATGGCCTTGATGAAAATGAGAAAATT
AGTGAAGTAGATTTCCAAAGAGTTATCGAAGAAGCTCATGTTATTGAATTTGCTAGACAA
TTGCCAGATGGATTAAATACACTTGTTGGGCAAAGAGGAATTATGTTGAGTGGTGGACAA
AAACAGCGTGTCGCAATTGCCAGAGCTTTAATTAAGAATCCTGAAATACTCATACTTGAT
GAAGCAACAAGTGCTCTCGATGCAGTTTCCGAAGAATTGATTCAAAAAGCACTTGAAAAT
TTGACAAAAGGACGAACTGTGTTGACCATAGCTCATAGATTGAGTACGATTAAAAATGCT
CAAAATATTTGCGTCTTGCAAGATGGGCGAATAATCGAACAAGGAAATTATCGTGAATTA
ATGAATCTACCTCAAGGAGCATTTAAAGAACTCGTACAGCATCAAACTTTTAAAACCTCA
GATGAAAGTTGA

>g9781.t3 Gene=g9781 Length=484
MQECSWFDTKGTGELVNRLSADTSMVGNSLSQNLSDGLRSTAMVLAGTGMMIYTSPSLAL
VGAGVVPCVAGMAVVYGRYLRNITRQMMDKLADVMKVGEERMGNIKTVKIFSKERRENEI
LSKELEDALQIGYRESKARAIFYGMTGLSGNIIIMSVLYYGGILVNDGSLSIGSLTSFIL
YAAYTAISIGGLSNFYTELNKGIGSATRIWEIMDRQPLIPIEGGLIPSLKPRGEISFRNV
SFNYPSRPDATVIKNMDMNVQAGQITAIVGRSGSGKSSIASLLMRLYDPQNGDIFLDGHN
LRTLDPSWLRKHIGAVNQEPVLFSGSIRDNILYGLDENEKISEVDFQRVIEEAHVIEFAR
QLPDGLNTLVGQRGIMLSGGQKQRVAIARALIKNPEILILDEATSALDAVSEELIQKALE
NLTKGRTVLTIAHRLSTIKNAQNICVLQDGRIIEQGNYRELMNLPQGAFKELVQHQTFKT
SDES

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g9781.t3 CDD cd18573 ABC_6TM_ABCB10_like 2 209 6.0315E-106
16 g9781.t3 CDD cd03249 ABC_MTABC3_MDL1_MDL2 235 476 4.59623E-124
8 g9781.t3 Gene3D G3DSA:1.20.1560.10 - 1 227 2.3E-75
7 g9781.t3 Gene3D G3DSA:3.40.50.300 - 228 483 5.2E-94
3 g9781.t3 PANTHER PTHR24221 ATP-BINDING CASSETTE SUB-FAMILY B 1 478 7.7E-238
4 g9781.t3 PANTHER PTHR24221:SF553 LD18126P 1 478 7.7E-238
1 g9781.t3 Pfam PF00664 ABC transporter transmembrane region 2 184 1.4E-47
2 g9781.t3 Pfam PF00005 ABC transporter 254 405 2.8E-36
12 g9781.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 57 -
15 g9781.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 58 80 -
10 g9781.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 81 139 -
13 g9781.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 140 160 -
11 g9781.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 161 171 -
14 g9781.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 172 192 -
9 g9781.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 193 484 -
21 g9781.t3 ProSitePatterns PS00211 ABC transporters family signature. 377 391 -
23 g9781.t3 ProSiteProfiles PS50929 ABC transporter integral membrane type-1 fused domain profile. 1 201 39.751
24 g9781.t3 ProSiteProfiles PS50893 ATP-binding cassette, ABC transporter-type domain profile. 235 474 25.09
22 g9781.t3 SMART SM00382 AAA_5 262 457 4.8E-16
5 g9781.t3 SUPERFAMILY SSF90123 ABC transporter transmembrane region 2 222 1.57E-52
6 g9781.t3 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 226 476 1.28E-86
20 g9781.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 58 80 -
19 g9781.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 141 163 -
18 g9781.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 173 195 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0055085 transmembrane transport BP
GO:0005524 ATP binding MF
GO:0042626 ATPase-coupled transmembrane transporter activity MF
GO:0016021 integral component of membrane CC
GO:0016887 ATP hydrolysis activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.

Raw TPM values